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Rule-based Modeling of Transcriptional Attenuation at the Tryptophan Operon Kuttler, Céline Lhoussaine, Cédric Nebut, Mirabelle Systems biology rule-based modeling languages stochastic simulation kappa. Transcriptional attenuation at E.coli's tryptophan operon is a prime example of RNA-mediated gene regulation. In this paper, we present a discrete stochastic model for this phenomenon based on chemical reactions. Our model is compact and intelligible, due to n-ary reactions (which preclude object-centric approaches) and to rule schemas that define finite sets of chemical reactions. Stochastic simulations with our model confirm results that were previously obtained by master equations or differential equations. In addition, our approach permits to reflect mutation experiments by simple model modifications, and to re-use model components for transcriptional attenuation in other genes and organisms. Schloss Dagstuhl – Leibniz-Zentrum für Informatik Céline Kuttler and Cédric Lhoussaine and Mirabelle Nebut 2009 Is Part Of Dagstuhl Seminar Proceedings, Volume 9091, Formal Methods in Molecular Biology (2009) InProceedings Text doc-type:ResearchArticle publishedVersion application/pdf doi:10.4230/DagSemProc.09091.6 urn:nbn:de:0030-drops-19938 https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.09091.6 eng https://creativecommons.org/licenses/by/4.0/legalcode